Bioinformatics Section 

DOE Human Genome Program Contractor-Grantee Workshop VIII
February 27-March 2, 2000  Santa Fe, NM

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65. Protein Domain Dissection and Functional Identification

Temple F. Smith, Sophia Zarakhovich, and Hongxian He

BioMolecular Engineering Research Center, College of Engineering, Boston University, 36 Cummington Street, Boston, MA 02215

tsmith@darwin.bu.edu

Using various multialignment and conserved pattern tools (e.g., psiBLAST, BLOCKS, pfam, pimaII, etc.) protein domains as "evolutionary modules" can generally be identified. Using a set of 20 completely sequenced microbial genomes (including yeast), we have generated over 1300 profiles representing diagnostic sequence domains. The majority either cover the entire length of the proteins matching the profile or identify a sequence region clearly identifiable in multiple distinct domain contexts. The relationship between such sequence domains and structural domains will be discussed with examples. The problems involved in associating these domains to a given biochemical function and/or the cellular role played by that function will also be addressed.
The online presentation of this publication is a special feature of the Human Genome Project Information Web site.